Acetylated nucleosome assembly on telomeric DNAs

Biophysical Chemistry

Volumn 104, Issue 2, 2003, Pages 381-392

  Cacchione, Stefano ^a   Rodríguez, José Luis ^b   Mechelli, Rosella ^a   Franco, Luis ^b   Savino, Maria ^a  

^a SAPIENZA UNIVERSITY OF ROME   (Italy)

^b UNIVERSITY OF VALENCIA   (Spain)

Author keywords

Histone acetylation; Nucleosome; Nucleosome positioning; Telomeres; Thermodynamic stability

Indexed keywords

DNA; HISTONE; MICROCOCCAL NUCLEASE; TRYPSIN;

ACETYLATION; AMINO TERMINAL SEQUENCE; ARTICLE; DNA SEQUENCE; HUMAN; KINETICS; NONHUMAN; NUCLEOSOME; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN INTERACTION; TELOMERE; THERMODYNAMICS;

EID: 0037811016     PISSN: 03014622     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0301-4622(03)00028-0     Document Type: Article

References (45)

1. Blackburn E.H., Greider C.W. Telomeres. 1995;Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York.
2. Greider C.W. Telomeres length regulation. Annu. Rev. Biochem. 65:1996;337-365.
3. Makarov V.L., Lejnine S., Bedoyan J., Langmore J.P. Nucleosomal organization of telomere-specific chromatin in rat. Cell. 73:1993;775-787.
4. Tommerup H., Dousmanis A., De Lange T. Unusual chromatin in human telomeres. Mol. Cell. Biol. 14:1994;5777-5785.
5. Lejnine S., Makarov V.L., Langmore J.P. Conserved nucleoprotein structure at the ends of vertebrate and invertebrate chromosomes. Proc. Natl. Acad. Sci. U.S.A. 92:1995;2393-2397.
6. Fajkus J., Kovarik J., Kralovics R., Bezdek M. Organization of telomeric and subtelomeric chromatin in the higher plant Nicotiana tabacum. Mol. Gen. Genet. 247:1995;633-638.
7. Wright J.H., Gottschling D.E., Zakian V.A. Saccharomyces telomeres assume a non-nucleosomal chromatin structure. Genes Dev. 6:1992;197-210.
8. Cohen P., Blackburn E. Two types of telomeric chromatin in Tetrahymena thermophila. J. Mol. Biol. 280:1998;327-344.
9. Cacchione S., Cerone M.A., Savino M. In vitro low propensity to form nucleosomes of four telomeric sequences. FEBS Lett. 400:1997;37-41.
10. Rossetti L., Cacchione S., Fuà M., Savino M. Nucleosome assembly on telomeric sequences. Biochemistry. 37:1998;6727-6737.
11. Filesi I., Cacchione S., De Santis P., Rossetti L., Savino M. The main role of the sequence-dependent DNA elasticity in determining the free energy of nucleosome formation on telomeric DNA. Biophys. Chem. 83:2000;223-237.
12. Shrader T.E., Crothers D.M. Artificial nucleosome positioning sequences. Proc. Natl. Acad. Sci. U.S.A. 86:1989;7418-7422.
13. Anselmi C., Bocchinfuso G., De Santis P., Fuà M., Savino M., Scipioni A. Dual role of DNA intrinsic curvature and flexibility in determining nucleosome stability. J. Mol. Biol. 286:1999;1293-1301.
14. Anselmi C., De Santis P., Paparcone R., Savino M., Scipioni A. From the sequence to the superstructural properties of DNAs. Biophys. Chem. 95:2002;23-47.
15. Anselmi C., Bocchinfuso G., De Santis P., Savino M., Scipioni A. A theoretical model for the prediction of sequence-dependent nucleosome thermodynamic stability. Biophys. J. 79:2000;601-613.
16. van Holde K.E. Chromatin. 1988;Springer Verlag, New York.
17. Strahl B.D., Allis C.D. The language of covalent histone modifications. Nature. 403:2000;41-45.
18. Lopez-Rodas G., Brosch G., Georgieva E.I., Sendra R., Franco L., Loidl P. Histone deacetylase. A key enzyme for the binding of regulatory proteins to chromatin. FEBS Lett. 317:1993;175-180.
19. Grunstein M. Histone acetylation in chromatin structure and transcription. Nature. 389:1997;349-352.
20. O'Neill L.P., Turner B.M. Histone H4 acetylation distinguishes coding regions of the human genome from heterochromatin in a differentiation-dependent but transcription-independent manner. EMBO J. 14:1995;3946-3957.
21. Turner B.M., Birley A.J., Lavender J. Histone H4 isoforms acetylated at specific lysine residues define individual chromosomes and chromatin domains in Drosophila polytene nuclei. Cell. 69:1992;375-384.
22. Braunstein M., Sobel R.E., Allis C.D., Turner B.M., Broach J.R. Efficient transcriptional silencing in Saccharomyces cerevisiae requires a heterochromatin histone acetylation pattern. Mol. Cell. Biol. 16:1996;4349-4356.
23. Sobel R.E., Cooke R.G., Perry C.A., Annunziato A.T., Allis C.D. Conservation of deposition-related acetylation sites in newly synthesized histones H3 and H4. Proc. Natl. Acad. Sci. U.S.A. 92:1995;1237-1241.
24. Verreault A. De novo nucleosome assembly: new pieces in an old puzzle. Genes Dev. 14:2000;1430-1438.
25. Jasencakova Z., Meister A., Walter J., Turner B.M., Schubert I. Histone H4 acetylation of euchromatin and heterochromatin is cell cycle dependent and correlated with replication rather than with transcription. Plant Cell. 12:2000;2087-2100.
26. Ausio J., Abbott D.W., Wang X., Moore S.C. Histone variants and histone modifications: a structural perspective. Biochem. Cell Biol. 79:2001;693-708.
27. Ausio J., van Holde K.E. Histone hyperacetylation: its effect on nucleosome conformation and stability. Biochemistry. 22:1986;1421-1428.
28. Ausio J., Dong F., van Holde K.E. Use of selectively trypsinized nucleosome core particles to analyze the role of the histone tails in the stabilization of the nucleosome. J. Mol. Biol. 206:1989;451-463.
29. Garcia-Ramirez M., Dong F., Ausio J. Role of the histone 'tails' in the folding of oligonucleosomes depleted of histone H1. J. Biol. Chem. 267:1992;19587-19595.
30. Garcia-Ramirez M., Rocchini C., Ausio J. Modulation of chromatin folding by histone acetylation. J. Biol. Chem. 270:1995;17923-17928.
31. De Santis P., Kropp B., Leoni L., Sampaolese B., Savino M. Influence of DNA superstructural features and histones aminoterminal domains on mononucleosome and dinucleosome positioning. Biophys. Chem. 62:1996;47-61.
32. Widlund H.R., Vitolo J.M., Thiriet C., Hayes J.J. DNA sequence-dependent contributions of core histone tails to nucleosome stability: differential effects of acetylation and proteolytic tail removal. Biochemistry. 39:2000;3835-3841.
33. Georgel P., Demeler B., Terpening C., Paule M.R., van Holde K.E. Binding of the RNA polymerase I transcription complex to its promoter can modify positioning of downstream nucleosomes assembled in vitro. J. Biol. Chem. 268:1993;1947-1954.
34. Smith E.R., Eisen A., Gu W., et al. ESA1 is a histone acetyltransferase that is essential for growth in yeast. Proc. Natl. Acad. Sci. U.S.A. 95:1998;3561-3565.
35. Marvin K.W., Yau P., Bradbury E.M. Isolation and characterization of acetylated histones H3 and H4 and their assembly into nucleosomes. J. Biol. Chem. 265:1990;19839-19847.
36. Bonner W.M., West M.H., Stedman J.D. Two-dimensional gel analysis of histones in acid extracts of nuclei, cells, and tissues. Eur. J. Biochem. 109:1980;17-23.
37. Thåström A., Lowary P.T., Widlund H.R., Cao H., Kubista M., Widom J. Sequence motifs and free energies of selected natural and non-natural nucleosome positioning DNA sequences. J. Mol. Biol. 288:1999;213-229.
38. Drew H.R. Can one measure the free energy of binding of the histone octamer to different DNA sequences by salt-dependent reconstitution? J. Mol. Biol. 219:1991;391-392.
39. Zhang D.-E., Nelson D.A. Histone acetylation in chicken erythrocytes. Rates of acetylation and evidence that histones in both active and potentially active chromatin are rapidly modified. Biochem. J. 250:1988;233-240.
40. Shrader T.E., Crothers D.M. Effects of DNA sequence and histone-histone interactions on nucleosome placement. J. Mol. Biol. 216:1990;69-84.
41. Anderson J.D., Lowary P.T., Widom J. Effects of histone acetylation on the equilibrium accessibility of nucleosomal DNA target sites. J. Mol. Biol. 307:2001;977-985.
42. Luger K., Mader A.W., Richmond R.K., Sargent D.F., Richmond T.J. X-Ray structure of the nucleosome core particle at 2.8 Å resolution. Nature. 389:1997;251-259.
43. Davey C.A., Sargent D.F., Luger K., Mader A.W., Richmond T.J. Solvent mediated interactions in the structure of the nucleosome core particle at 1.9 Å resolution. J. Mol. Biol. 319:2002;1097-1113.
44. Norton V.G., Imai B.S., Yau P., Bradbury E.M. Histone acetylation reduces nucleosome core particle linking number change. Cell. 57:1989;449-457.
45. Wang X., Moore S.C., Laszckzack M., Ausio J. Acetylation increases the alpha-helical content of the histone tails of the nucleosome. J. Biol. Chem. 275:2000;35013-35020.